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mmu_circPik3c3_159
Basic information of circular RNA
PanCircBase ID:
mmu_circPik3c3_159
mm39_Chr. Position ID:
chr18|30436618|30438095|+
Gene name:
Pik3c3
Transcript:
ENSMUST00000115812.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
12,13
Exon/intron offsets:
0,1409
Genomic length:
1477
Exon/intron sizes in nt:
91,68
Flanking exon/introns:
chr18:30436127-30436618|chr18:30438095-30444272
Splice length:
159
Other database IDs:
CIRCpedia: MMU_CIRCpedia_15774, circAtlas: mmu-Pik3c3_0010
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CTCCCAAATTATAACCAACCCTCTTCCTCCCGTGGCCTCCCCTCCTCCTGCATCTAAAGCAAAGGAAGTTTCCGATGGGGAAAATCTCGAGCAAGATCTATGTACGTTCTTGATATCAAGAGCCTGTAAGAACTCAACACTGGCTAATTATTTATACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCGAGCAAGATCTATGTACGT
58.87
TAGATGCAGGAGGAGGGGAG
59.81
131
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCGAGCAAGATCTATGTACGT
57.52
TAGATGCAGGAGGAGGGGAG
59.81
130
PCR template sequence:
AAAATCTCGAGCAAGATCTATGTACGTTCTTGATATCAAGAGCCTGTAAGAACTCAACACTGGCTAATTATTTATACTGCTCCCAAATTATAACCAACCCTCTTCCTCCCGTGGCCTCCCCTCCTCCTGCATCTAAAGCAAAGGAAGTTTCCGATGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTATTTATACTGCTCCCAAATTATA
siRNA sets
TATAATTTGGGAGCAGTAT, ATTTGGGAGCAGTATAAAT, TTTGGGAGCAGTATAAATA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.762950872
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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